Advanced Molecular Detection Clips Content (Published on 02/18/2016)
NEWS
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UCSF-led Team IDs Blood Expression Signature in Individuals With Acute Lyme Disease
Anderson A. GenomeWeb, Feb 12, 2016. -
New cause for Lyme disease complicates already murky diagnosis
Moyer MW. Nature (via Scientific American), Feb 16, 2016. -
A new method to dramatically improve the sequencing of metagenomes
phys.org, Feb 16, 2016. -
Search technique helps researchers find DNA sequences in minutes rather than days
phys.org, Feb 8, 2016. -
Novel herpes virus isolated from bat cells
Eurekalert, Feb 17, 2016. -
Can CRISPR help edit out female mosquitos?
phys.org, Feb 17, 2016.
EVENTS / TRAINING / WEB RESOURCES
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New video on the NCBI YouTube channel: Viral resources at NCBI
(video) NCBI, Feb 11, 2016.
CONCEPTS / COMMENTS
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Ten Simple Rules for Selecting a Bio-ontology.
Malone James et al. PLoS computational biology 2016 Feb (2) e1004743 -
Single-cell genome sequencing: current state of the science.
Gawad Charles et al. Nature reviews. Genetics 2016 Jan -
Sharing Data for Global Infectious Disease Surveillance and Outbreak Detection.
Aarestrup Frank M et al. Trends in microbiology 2016 Feb -
Zika Virus in the Americas - Yet Another Arbovirus Threat.
Fauci Anthony S et al. The New England journal of medicine 2016 Feb (7) 601-604 -
Viruses Causing Gastroenteritis: The Known, The New and Those Beyond.
Munnink Bas B Oude et al. Viruses 2016 (2) -
Genetically-modified insects to combat vector-borne diseases curtain rise or fall?
(editorial) Nat Rev Genet, Feb 8, 2016. -
Immunoinformatics and epitope prediction in the age of genomic medicine
Backert L, Kohlbacher O. Genome Med 2015; 7:119.
METHODS / TOOLS
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Practical Approaches for Detecting Selection in Microbial Genomes.
Hedge Jessica et al. PLoS computational biology 2016 Feb (2) e1004739 -
SpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads
Xia E, et al. Genome Med, Feb 17, 2016. -
Ten years of maintaining and expanding a microbial genome and metagenome analysis system.
Markowitz Victor M et al. Trends in microbiology 2015 Nov (11) 730-41 -
Network-Thinking: Graphs to Analyze Microbial Complexity and Evolution.
Corel Eduardo et al. Trends in microbiology 2016 Jan -
SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments
Page AJ, et al. bioRxiv, Jan 29, 2016. -
MetaFlow: Metagenomic profiling based on whole-genome coverage analysis with min-cost flows
Sobih A, et al. bioRxiv, Jan 29, 2016. -
TruSPAdes: barcode assembly of TruSeq synthetic long reads.
Bankevich Anton et al. Nature methods 2016 Feb -
Fast search of thousands of short-read sequencing experiments.
Solomon Brad et al. Nature biotechnology 2016 Feb
EVOLUTION / ECOLOGY / POPULATIONS
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A Phylogenetic and Phenotypic Analysis of Salmonella enterica Serovar Weltevreden, an Emerging Agent of Diarrheal Disease in Tropical Regions.
Makendi Carine et al. PLoS neglected tropical diseases 2016 Feb (2) e0004446 -
Two Distinct Yersinia pestis Populations Causing Plague among Humans in the West Nile Region of Uganda.
Respicio-Kingry Laurel B et al. PLoS neglected tropical diseases 2016 Feb (2) e0004360
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Global epidemiology of capsular group W meningococcal disease (1970-2015): Multifocal emergence and persistence of hypervirulent sequence type (ST)-11 clonal complex.
Mustapha Mustapha M et al. Vaccine 2016 Feb -
Applications of Bayesian Phylodynamic Methods in a Recent U.S. Porcine Reproductive and Respiratory Syndrome Virus Outbreak.
Alkhamis Mohammad A et al. Frontiers in microbiology 2016 67 -
Reconstruction of the Evolutionary History and Dispersal of Usutu Virus, a Neglected Emerging Arbovirus in Europe and Africa.
Engel Dimitri et al. mBio 2016 (1) -
Complete genome sequence of mumps viruses isolated from patients with parotitis, pancreatitis and encephalitis in India.
Vaidya Sunil R et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Feb -
High genetic diversity and frequent genetic reassortment of avian influenza A(H9N2) viruses along the East Asian-Australian migratory flyway.
Wang Haiming et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Feb -
Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection
Crellen T, et al. Sci Rep, Feb 16, 2016.
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Linezolid resistance in clinical isolates of Staphylococcus epidermidis from German hospitals and characterization of two cfr-carrying plasmids.
Bender Jennifer et al. The Journal of antimicrobial chemotherapy 2015 (6) 1630-8 -
CTX-M-27- and CTX-M-14-producing, ciprofloxacin-resistant Escherichia coli of the H30 subclonal group within ST131 drive a Japanese regional ESBL epidemic.
Matsumura Yasufumi et al. The Journal of antimicrobial chemotherapy 2015 (6) 1639-49 -
Relevance of spontaneous fabT mutations to a streptococcal toxic shock syndrome to non-streptococcal toxic shock syndrome transition in the novel-type Streptococcus pyogenes isolates that lost a salRK.
Tatsuno Ichiro et al. APMIS : acta pathologica, microbiologica, et immunologica Scandinavica 2016 Feb -
Mechanisms of cephalosporin resistance in indicator Escherichia coli isolated from food animals.
Lalak Anna et al. Veterinary microbiology 2016 Feb
DETECTION / DIAGNOSIS
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Evaluation of a Labelled Bacteriophage with 99mTc as a Potential Agent for Infection Diagnosis.
Elena Cardoso María et al. Current radiopharmaceuticals 2016 Feb -
Genetic Variability of HIV-1 for Drug Resistance Assay Development.
Clutter Dana S et al. Viruses 2016 (2) -
Viremia Frequencies of a Novel Human Pegivirus Evaluated by using Bioinformatic Screening and PCR
Bonsall D, et al. Emerg Infect Dis, Apr 2016. -
Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study.
Calvet Guilherme et al. The Lancet. Infectious diseases 2016 Jun (6) 653-660 -
Ultradeep sequencing in the therapeutic management of HIV-1 infection at treatment initiation.
Todesco Eve et al. The Journal of antimicrobial chemotherapy 2015 (6) 1919-20 -
Identification of blood meal sources in the main African malaria mosquito vector by MALDI-TOF MS.
Niare Sirama et al. Malaria journal 2016 (1) 87
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Whole Genome Analysis of Injectional Anthrax Identifies Two Disease Clusters Spanning More Than 13 Years.
Keim Paul et al. EBioMedicine 2015 Nov (11) 1613-8 -
Use of whole-genome sequencing to trace, control and characterize the regional expansion of extended-spectrum β-lactamase producing ST15 Klebsiella pneumoniae.
Zhou Kai et al. Scientific reports 2016 20840 -
Microbiological diagnosis and molecular typing of Legionella strains during an outbreak of legionellosis in Southern Germany.
Essig Andreas et al. International journal of medical microbiology : IJMM 2016 Jan -
Tracing melioidosis back to the source: using whole-genome sequencing to investigate an outbreak originating from a contaminated domestic water supply.
McRobb Evan et al. Journal of clinical microbiology 2015 Apr (4) 1144-8 -
Delineating community outbreaks of Salmonella enterica serovar Typhimurium by use of whole-genome sequencing: insights into genomic variability within an outbreak.
Octavia Sophie et al. Journal of clinical microbiology 2015 Apr (4) 1063-71 -
Identifying the effect of patient sharing on between-hospital genetic differentiation of methicillin-resistant Staphylococcus aureus
Chang HH, et al. Genome Med, Feb 13, 2016. -
Hepatitis C Virus Subtype and Evolution Characteristic Among Drug Users, Men Who Have Sex With Men, and the General Population in Beijing, China.
Jiao Yang et al. Medicine 2016 Feb (6) e2688 -
Molecular Epidemiology and Transmission Dynamics of Recent and Long-Term HIV-1 Infections in Rural Western Kenya.
Zeh Clement et al. PloS one 2016 (2) e0147436
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Whole-Genome Sequencing to Determine Origin of Multinational Outbreak of Sarocladium kiliense Bloodstream Infections.
Etienne Kizee A et al. Emerging infectious diseases 2016 Mar (3) 476-81
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Cheating evolution: engineering gene drives to manipulate the fate of wild populations.
Champer Jackson et al. Nature reviews. Genetics 2016 Feb
HOST-MICROBE INTERACTIONS
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Longitudinal Transcriptome Analysis Reveals a Sustained Differential Gene Expression Signature in Patients Treated for Acute Lyme Disease.
Bouquet Jerome et al. mBio 2015 (1) -
Gene control of tyrosine kinase TIE2 and vascular manifestations of infections
Ghosh CC, et al. Proc Nat Acad Sci, Feb 18, 2016. -
Polymorphisms in HLA Class II Genes Are Associated With Susceptibility to Staphylococcus aureus Infection in a White Population.
DeLorenze Gerald N et al. The Journal of infectious diseases 2015 Oct -
Integrated Omics Analysis of Pathogenic Host Responses during Pandemic H1N1 Influenza Virus Infection: The Crucial Role of Lipid Metabolism.
Tisoncik-Go Jennifer et al. Cell host & microbe 2016 Feb (2) 254-66 -
Comprehensive description of blood microbiome from healthy donors assessed by 16S targeted metagenomic sequencing.
Païssé Sandrine et al. Transfusion 2016 Feb -
On the Origins and Control of Community Types in the Human Microbiome.
Gibson Travis E et al. PLoS computational biology 2016 Feb (2) e1004688 -
A necrotizing enterocolitis-associated gut microbiota is already present in the meconium: results of a prospective study.
Heida Fardou H et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Jan -
Composition and dynamics of the respiratory tract microbiome in intubated patients.
Kelly Brendan J et al. Microbiome 2016 (1) 7 -
Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes
Yassour M, et al. Genome Med, Feb 17, 2016.
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indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice. Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by the CDC Office of Genomics and Precision Public Health to provide current awareness of the scientific literature and news. Inclusion in the clips does not necessarily represent the views of the Centers for Disease Control and Prevention nor does it imply endorsement of the article's methods or findings. CDC and DHHS assume no responsibility for the factual accuracy of the items presented. The selection, omission, or content of items does not imply any endorsement or other position taken by CDC or DHHS. Opinion, findings and conclusions expressed by the original authors of items included in the Clips, or persons quoted therein, are strictly their own and are in no way meant to represent the opinion or views of CDC or DHHS. References to publications, news sources, and non-CDC Websites are provided solely for informational purposes and do not imply endorsement by CDC or DHHS.
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